Rroxscaffold_3G00241590

DNA polymerase III, delta subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0008140
Physical Location & Seq
Forward (+)
33818121 .. 33819220
1100 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00241590.1

Sequence Viewer

Length: 1017 bp
ATGCAGTTGCATAGCCTAACCCACAGCAGGTCCTCTGTGAACCACATTGCCATCAGCAACACTGCTGAGCAACAAGAGATGGACAATAGTAAACAAAAGTCTACCATCAAAAGCATTTCAAAACAGACAAATTGCAGAGACACGGCAGTTGATGGAGAGGCCCACTTTACTTGCATCAGTGAAATGGAAGAAATCTGGCAAAACATGTTGGGCAGGATGCATAGTTCATATTTGAAAGACTTTTTGCGCCACAAAGTGAAGCTTGCATCATTAACTATAACTAGTGCCAATGCAATTTTGCATTTGATGTTCAAAAGACCAGAAGACAAGCAGATCGCTCAGATGTCTGAAGAACACCTATCGGAGACTCTAGAGAACGCTATAGGATGCCCAATTATTCTAAATATGAGCCTAGAGCCTGTGGACTTGAAAATCTCAGACGAAAACTCGGCCTCCAGTTATCAGACACAGCTAGTAGAGAGCAGTCATTTTAAACATGGAACAACATTTGTTCCTGAACCTGTTTATGAAGCAGATCTTGGAGCTGCAGTGCAACACAGTGGTCAGATGAAAACCAACTCCTTAAACAGAGAGCAAGTTAAGGCCAACAAAGCTGATGGCTGCAAACTGATATCTAAAAGACAAGACAAATACAGTACAAGCATAAAGGAGGAAACCATTGCTCAGCCACAGGAGATAATACCCTTCAATGATCATTTAAGACAAGAGAACCAAGAGGATGCATCTATTGATTCGATAACAGATTCTTTGAGTTCTCTGATGGACACAACTCGTACAATGAGAACACAAAGGGCCCAGAGGAAGTGGTTGTCTGTATCCTCTGCTCAACAAAGTGATGCAAGCATTGAACCATACAGTCAAGATATATCGTTCGACAATGCAAAGACAAAGCAAAAGAGTAGTGCAAAATCCCAAAAGCTTCCAAAAGCATTCTTTAAGGTTAAAGAACTTCATGATTCTCAAGAAGGTCCAAGAAACAGGTACATACTAACTTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
DNA_pol3_delta2 DNA_pol3_gamma3

Protein Analysis

338

Amino Acids

38.19

Weight (kDa)

6.51

Isoelectric Point (pI)

48.41

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DnaA_N-like_STI PF23007 60 - 138 4.6e-19 STICHEL, DnaA_N-like alpha-beta domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 18
AccI GTMKAC 1 cut(s) 101
AcuI CTGAAG 1 cut(s) 369
AdeI CACNNNGTG 1 cut(s) 256
AfaI GTAC 3 cut(s) 658, 796, 1004
AfiI CCNNNNNNNGG 1 cut(s) 27
AflIII ACRYGT 1 cut(s) 204
AgsI TTSAA 6 cut(s) 120, 235, 313, 430, 709, 869
AhlI ACTAGT 1 cut(s) 281
AjuI GAANNNNNNNTTGG 2 cut(s) 522, 554
AloI GAACNNNNNNTCC 2 cut(s) 208, 240
AluBI AGCT 5 cut(s) 262, 472, 545, 614, 940
AluI AGCT 5 cut(s) 262, 472, 545, 614, 940
Alw26I GTCTC 2 cut(s) 132, 359
AoxI GGCC 4 cut(s) 159, 450, 603, 813
ApaI GGGCCC 1 cut(s) 817
ApeKI GCWGC 2 cut(s) 545, 621
AspLEI GCGC 1 cut(s) 249
AspS9I GGNCC 5 cut(s) 30, 160, 813, 814, 989
AvaII GGWCC 2 cut(s) 30, 989
BaeGI GKGCMC 1 cut(s) 817
BanII GRGCYC 1 cut(s) 817
BbsI GAAGAC 1 cut(s) 330
BbvI GCAGC 2 cut(s) 532, 608
BccI CCATC 6 cut(s) 59, 73, 113, 146, 611, 775
BceAI ACGGC 1 cut(s) 159
BciVI GTATCC 1 cut(s) 847
BclI TGATCA 1 cut(s) 712
BcoDI GTCTC 2 cut(s) 132, 359
BcuI ACTAGT 1 cut(s) 281
BfaI CTAG 4 cut(s) 282, 371, 413, 473
BfmI CTRYAG 2 cut(s) 381, 546
BfuAI ACCTGC 1 cut(s) 18
BfuI GTATCC 1 cut(s) 847
BglII AGATCT 1 cut(s) 535
BisI GCNGC 2 cut(s) 546, 622
BlpI GCTNAGC 2 cut(s) 66, 684
BlsI GCNGC 2 cut(s) 547, 623
Bme18I GGWCC 2 cut(s) 30, 989
BmgT120I GGNCC 5 cut(s) 30, 160, 813, 814, 989
BmiI GGNNCC 1 cut(s) 815
BmsI GCATC 7 cut(s) 183, 207, 275, 377, 730, 752, 847
BpiI GAAGAC 1 cut(s) 330
BpmI CTGGAG 1 cut(s) 439
Bpu1102I GCTNAGC 2 cut(s) 66, 684
BpuEI CTTGAG 1 cut(s) 966
BsaXI ACNNNNNCTCC 4 cut(s) 437, 467, 534, 564
Bsc4I CCNNNNNNNGG 1 cut(s) 27
Bse1I ACTGG 1 cut(s) 456
Bse3DI GCAATG 2 cut(s) 45, 678
BseGI GGATG 3 cut(s) 222, 392, 745
BseLI CCNNNNNNNGG 1 cut(s) 27
BseMI GCAATG 2 cut(s) 45, 678
BseMII CTCAG 4 cut(s) 57, 353, 450, 698
BseNI ACTGG 1 cut(s) 456
BseSI GKGCMC 1 cut(s) 817
BseXI GCAGC 2 cut(s) 532, 608
BshFI GGCC 4 cut(s) 161, 452, 605, 815
BslI CCNNNNNNNGG 1 cut(s) 27
BsmAI GTCTC 2 cut(s) 132, 359
BsmI GAATGC 1 cut(s) 950
BsnI GGCC 4 cut(s) 161, 452, 605, 815
Bsp120I GGGCCC 1 cut(s) 813
Bsp1286I GDGCHC 1 cut(s) 817
Bsp143I GATC 3 cut(s) 333, 535, 712
Bsp1720I GCTNAGC 2 cut(s) 66, 684
BspANI GGCC 4 cut(s) 161, 452, 605, 815
BspCNI CTCAG 4 cut(s) 58, 352, 449, 697
BspHI TCATGA 1 cut(s) 973
BspLI GGNNCC 1 cut(s) 815
BspMAI CTGCAG 1 cut(s) 550
BspMI ACCTGC 1 cut(s) 18
BsrDI GCAATG 2 cut(s) 45, 678
BsrI ACTGG 1 cut(s) 456
BssMI GATC 3 cut(s) 333, 535, 712
Bst4CI ACNGT 3 cut(s) 560, 656, 878
BstC8I GCNNGC 2 cut(s) 264, 862
BstDEI CTNAG 4 cut(s) 66, 339, 436, 684
BstF5I GGATG 3 cut(s) 222, 392, 745
BstHHI GCGC 1 cut(s) 249
BstKTI GATC 3 cut(s) 336, 538, 715
BstMAI GTCTC 2 cut(s) 132, 359
BstMBI GATC 3 cut(s) 333, 535, 712
BstMWI GCNNNNNNNGC 1 cut(s) 611
BstNSI RCATGY 1 cut(s) 208
BstSFI CTRYAG 2 cut(s) 381, 546
BstSLI GKGCMC 1 cut(s) 817
BstV1I GCAGC 2 cut(s) 532, 608
BstV2I GAAGAC 1 cut(s) 330
BstX2I RGATCY 1 cut(s) 535
BstYI RGATCY 1 cut(s) 535
BsuI GTATCC 1 cut(s) 847
BsuRI GGCC 4 cut(s) 161, 452, 605, 815
BtsCI GGATG 3 cut(s) 222, 392, 745
BtsI GCAGTG 2 cut(s) 60, 555
BtsIMutI CAGTG 4 cut(s) 60, 184, 555, 565
BveI ACCTGC 1 cut(s) 18
Cac8I GCNNGC 2 cut(s) 264, 862
CciI TCATGA 1 cut(s) 973
CfoI GCGC 1 cut(s) 249
Cfr13I GGNCC 5 cut(s) 30, 160, 813, 814, 989
Csp6I GTAC 3 cut(s) 657, 795, 1003
CspCI CAANNNNNGTGG 2 cut(s) 152, 187
CviAII CATG 3 cut(s) 205, 497, 974
CviQI GTAC 3 cut(s) 657, 795, 1003
DdeI CTNAG 4 cut(s) 66, 339, 436, 684
DpnI GATC 3 cut(s) 335, 537, 714
DpnII GATC 3 cut(s) 333, 535, 712
DraI TTTAAA 1 cut(s) 493
DraIII CACNNNGTG 1 cut(s) 256
Eco24I GRGCYC 1 cut(s) 817
Eco32I GATATC 1 cut(s) 633
Eco47I GGWCC 2 cut(s) 30, 989
Eco57I CTGAAG 1 cut(s) 369
EcoO109I RGGNCCY 2 cut(s) 30, 813
EcoRV GATATC 1 cut(s) 633
EcoT22I ATGCAT 2 cut(s) 222, 745
EcoT38I GRGCYC 1 cut(s) 817
FaeI CATG 3 cut(s) 208, 500, 977
FalI AAGNNNNNCTT 4 cut(s) 246, 278, 522, 554
FatI CATG 3 cut(s) 204, 496, 973
FbaI TGATCA 1 cut(s) 712
FblI GTMKAC 1 cut(s) 101
Fnu4HI GCNGC 2 cut(s) 546, 622
FokI GGATG 3 cut(s) 229, 399, 752
FriOI GRGCYC 1 cut(s) 817
Fsp4HI GCNGC 2 cut(s) 546, 622
FspBI CTAG 4 cut(s) 282, 371, 413, 473
GlaI GCGC 1 cut(s) 248
GluI GCNGC 2 cut(s) 546, 622
GsuI CTGGAG 1 cut(s) 439
HaeIII GGCC 4 cut(s) 161, 452, 605, 815
HhaI GCGC 1 cut(s) 249
Hin1II CATG 3 cut(s) 208, 500, 977
Hin6I GCGC 1 cut(s) 247
HinP1I GCGC 1 cut(s) 247
HindIII AAGCTT 2 cut(s) 260, 938
HinfI GANTC 4 cut(s) 367, 752, 764, 977
Hpy166II GTNNAC 4 cut(s) 40, 92, 102, 424
Hpy188I TCNGA 7 cut(s) 342, 349, 364, 439, 465, 567, 780
Hpy188III TCNNGA 5 cut(s) 371, 515, 881, 974, 983
Hpy8I GTNNAC 4 cut(s) 40, 92, 102, 424
HpyAV CCTTC 2 cut(s) 715, 980
HpyCH4III ACNGT 3 cut(s) 560, 656, 878
HpyF10VI GCNNNNNNNGC 1 cut(s) 611
HpyF3I CTNAG 4 cut(s) 66, 339, 436, 684
Hsp92II CATG 3 cut(s) 208, 500, 977
HspAI GCGC 1 cut(s) 247
Ksp22I TGATCA 1 cut(s) 712
Kzo9I GATC 3 cut(s) 333, 535, 712
LmnI GCTCC 1 cut(s) 542
Lsp1109I GCAGC 2 cut(s) 532, 608
LweI GCATC 7 cut(s) 183, 207, 275, 377, 730, 752, 847
MaeI CTAG 4 cut(s) 282, 371, 413, 473
MalI GATC 3 cut(s) 335, 537, 714
MboI GATC 3 cut(s) 333, 535, 712
MboII GAAGA 3 cut(s) 200, 335, 362
MflI RGATCY 1 cut(s) 535
MhlI GDGCHC 1 cut(s) 817
MluCI AATT 3 cut(s) 130, 294, 393
MlyI GAGTC 1 cut(s) 361
MnlI CCTC 7 cut(s) 43, 151, 463, 664, 730, 813, 850
Mph1103I ATGCAT 2 cut(s) 222, 745
MseI TTAA 8 cut(s) 272, 492, 584, 600, 719, 957, 963, 1015
Mva1269I GAATGC 1 cut(s) 950
MwoI GCNNNNNNNGC 1 cut(s) 611
NdeII GATC 3 cut(s) 333, 535, 712
NlaIII CATG 3 cut(s) 208, 500, 977
NlaIV GGNNCC 1 cut(s) 815
NmeAIII GCCGAG 1 cut(s) 428
NsiI ATGCAT 2 cut(s) 222, 745
NspI RCATGY 1 cut(s) 208
PagI TCATGA 1 cut(s) 973
PciI ACATGT 1 cut(s) 204
PctI GAATGC 1 cut(s) 950
PfeI GAWTC 3 cut(s) 752, 764, 977
PkrI GCNGC 2 cut(s) 547, 623
PleI GAGTC 1 cut(s) 361
PpsI GAGTC 1 cut(s) 361
PpuMI RGGWCCY 1 cut(s) 30
PscI ACATGT 1 cut(s) 204
Psp5II RGGWCCY 1 cut(s) 30
PspN4I GGNNCC 1 cut(s) 815
PspOMI GGGCCC 1 cut(s) 813
PspPI GGNCC 5 cut(s) 30, 160, 813, 814, 989
PspPPI RGGWCCY 1 cut(s) 30
PstI CTGCAG 1 cut(s) 550
PsuI RGATCY 1 cut(s) 535
RsaI GTAC 3 cut(s) 658, 796, 1004
RsaNI GTAC 3 cut(s) 657, 795, 1003
SaqAI TTAA 8 cut(s) 272, 492, 584, 600, 719, 957, 963, 1015
SatI GCNGC 2 cut(s) 546, 622
Sau3AI GATC 3 cut(s) 333, 535, 712
Sau96I GGNCC 5 cut(s) 30, 160, 813, 814, 989
SchI GAGTC 1 cut(s) 361
SduI GDGCHC 1 cut(s) 817
SfaNI GCATC 7 cut(s) 183, 207, 275, 377, 730, 752, 847
SfcI CTRYAG 2 cut(s) 381, 546
SinI GGWCC 2 cut(s) 30, 989
SmlI CTYRAG 1 cut(s) 981
SmoI CTYRAG 1 cut(s) 981
SpeI ACTAGT 1 cut(s) 281
Sse9I AATT 3 cut(s) 130, 294, 393
SspMI CTAG 4 cut(s) 282, 371, 413, 473
TaaI ACNGT 3 cut(s) 560, 656, 878
TaqI TCGA 2 cut(s) 755, 894
TasI AATT 3 cut(s) 130, 294, 393
TatI WGTACW 1 cut(s) 656
TfiI GAWTC 3 cut(s) 752, 764, 977
Tru1I TTAA 8 cut(s) 272, 492, 584, 600, 719, 957, 963, 1015
Tru9I TTAA 8 cut(s) 272, 492, 584, 600, 719, 957, 963, 1015
TscAI CASTG 4 cut(s) 67, 184, 555, 565
TseI GCWGC 2 cut(s) 545, 621
TspDTI ATGAA 4 cut(s) 216, 543, 584, 962
TspRI CASTG 4 cut(s) 67, 184, 555, 565
VpaK11BI GGWCC 2 cut(s) 30, 989
XbaI TCTAGA 1 cut(s) 370
XceI RCATGY 1 cut(s) 208
XmiI GTMKAC 1 cut(s) 101
XspI CTAG 4 cut(s) 282, 371, 413, 473
Zsp2I ATGCAT 2 cut(s) 222, 745
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.